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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ), 'gf_id' => 'HOM05D001072', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001072' ), 'data_identifier' => 'HOM05D001072', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001072', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '571', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p23350' => 'bna', 'A02p07710' => 'bna', 'A02p36700' => 'bna', 'A03p03080' => 'bna', 'A03p12250' => 'bna', 'A05p07730' => 'bna', 'A08p02870' => 'bna', 'A09p39420' => 'bna', 'A10p15850' => 'bna', 'A10p28890' => 'bna', 'Aa31LG11G200' => 'aar', 'Aa31LG6G2230' => 'aar', 'Aa31LG9G11050' => 'aar', 'Aa31sc25G180' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2606' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2613' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.918' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.786' => 'aag', 'Actinidia20757' => 'ach', 'Actinidia29076' => 'ach', 'Actinidia32535' => 'ach', 'Actinidia32600' => 'ach', 'Ah.08g215250' => 'amhyb', 'Ah.09g228980' => 'amhyb', 'Ah.12g058970' => 'amhyb', 'Ah.15g096170' => 'amhyb', 'AL3G50240' => 'aly', 'AL6G17270' => 'aly', 'AL8G34570' => 'aly', 'AL8G34610' => 'aly', 'Aqoxy1G01311' => 'aox', 'Aqoxy2G00802' => 'aox', 'Aqoxy4G02167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.D9F591' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QD7CJP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6TLY6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UBX05Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XX59BG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y7FANU' => 'arhy', 'AT2G17360' => 'ath', 'AT5G07090' => 'ath', 'AT5G58410' => 'ath', 'AT5G58420' => 'ath', 'ATR0681G329' => 'atr', 'ATR0810G275' => 'atr', 'Atru.chr1.2576' => 'acertr', 'Atru.chr3.4139' => 'acertr', 'Atru.chr3.4140' => 'acertr', 'Atru.chr7.1563' => 'acertr', 'Atru.chr7.1565' => 'acertr', 'AUR62023973' => 'cqu', 'AUR62025311' => 'cqu', 'AUR62028316' => 'cqu', 'AUR62030515' => 'cqu', 'AUR62030778' => 'cqu', 'AUR62031771' => 'cqu', 'BcaB01g04524' => 'bca', 'BcaB01g06035' => 'bca', 'BcaB05g21631' => 'bca', 'BcaB05g22429' => 'bca', 'BcaB06g26312' => 'bca', 'BcaB07g31839' => 'bca', 'BcaB08g36177' => 'bca', 'BcaC02g08617' => 'bca', 'BcaC02g10700' => 'bca', 'BcaC03g13178' => 'bca', 'BcaC03g14097' => 'bca', 'BcaC04g19869' => 'bca', 'BcaC06g34854' => 'bca', 'BolC2t06260H' => 'bol', 'BolC2t06261H' => 'bol', 'BolC2t07448H' => 'bol', 'BolC3t12889H' => 'bol', 'BolC3t13880H' => 'bol', 'BolC3t13881H' => 'bol', 'BolC4t22541H' => 'bol', 'BolC4t22543H' => 'bol', 'BolC9t57885H' => 'bol', 'BolC9t57886H' => 'bol', 'BolC9t59668H' => 'bol', 'BraA01t02244Z' => 'bra', 'BraA02t04904Z' => 'bra', 'BraA02t05846Z' => 'bra', 'BraA02t08665Z' => 'bra', 'BraA03t09665Z' => 'bra', 'BraA03t10536Z' => 'bra', 'BraA05t19741Z' => 'bra', 'BraA10t43640Z' => 'bra', 'BraA10t44936Z' => 'bra', 'BraSC36t46084Z' => 'bra', 'C02p02990' => 'bna', 'C02p13360' => 'bna', 'C02p58990' => 'bna', 'C03p03470' => 'bna', 'C03p14380' => 'bna', 'C04p09370' => 'bna', 'C04p09400' => 'bna', 'C06p24800' => 'bna', 'C08p14450' => 'bna', 'C08p17930' => 'bna', 'C09p50300' => 'bna', 'C09p69240' => 'bna', 'CAN.G1029.4' => 'can', 'CAN.G106.24' => 'can', 'CAN.G349.7' => 'can', 'CAN.G349.8' => 'can', 'CAN.G660.33' => 'can', 'CAN.G663.6' => 'can', 'CAN.G741.3' => 'can', 'CAN.G741.41' => 'can', 'CAN.G741.42' => 'can', 'CANSAT54G0981' => 'cansat', 'CANSAT54G2865' => 'cansat', 'CANSAT56G4014' => 'cansat', 'CARHR107490' => 'chi', 'CARHR132920' => 'chi', 'CARHR206050' => 'chi', 'CARHR272240' => 'chi', 'CARHR272250' => 'chi', 'Carub.0003s3139' => 'cru', 'Carub.0006s0601' => 'cru', 'Carub.0008s1900' => 'cru', 'Carub.0008s1901' => 'cru', 'Ca_05680_v3' => 'car', 'Ca_05990_v3' => 'car', 'Ca_07685_v3' => 'car', 'Ca_24819_v3' => 'car', 'CBR_g30901' => 'cbr', 'CBR_g37361' => 'cbr', 'CBR_g45273' => 'cbr', 'CBR_g8986' => 'cbr', 'Cc00_g20400' => 'ccan', 'Cc01_g15000' => 'ccan', 'Cc03_g11160' => 'ccan', 'Cc06_g00900' => 'ccan', 'Cc08_g06470' => 'ccan', 'Cc11_g02460' => 'ccan', 'CDE01G0495' => 'cde', 'CDE04G3416' => 'cde', 'CDE05G3253' => 'cde', 'CDE11G1118' => 'cde', 'CDE12G0857' => 'cde', 'Cfa001283' => 'cfa', 'Cfa011756' => 'cfa', 'Cfa020948' => 'cfa', 'Cfa024396' => 'cfa', 'Cfa024964' => 'cfa', 'Ciclev10000015m.g' => 'ccl', 'Ciclev10012499m.g' => 'ccl', 'CiPaw.09G140300' => 'cil', 'CiPaw.13G067600' => 'cil', 'CiPaw.14G055500' => 'cil', 'ClCG03G000170' => 'cla', 'ClCG07G004510' => 'cla', 'ClCG09G010520' => 'cla', 'COL.COLO4_11172' => 'col', 'COL.COLO4_14472' => 'col', 'Cpa.g.sc1.326' => 'cpa', 'Cpa.g.sc2.314' => 'cpa', 'Cpa.g.sc2.338' => 'cpa', 'Cpa.g.sc70.92' => 'cpa', 'Cre06.g252100' => 'cre', 'Cre06.g308250' => 'cre', 'CsaV3_1G036730' => 'csa', 'CsaV3_5G010420' => 'csa', 'CsaV3_5G010450' => 'csa', 'CsaV3_7G024050' => 'csa', 'CsaV3_7G024080' => 'csa', 'CSS0005788' => 'camsi', 'CSS0006164' => 'camsi', 'CSS0014226' => 'camsi', 'CSS0014731' => 'camsi', 'CSS0035690' => 'camsi', 'CSS0035878' => 'camsi', 'CSS0047648' => 'camsi', 'DCAR_012278' => 'dca', 'DCAR_015366' => 'dca', 'DCAR_018643' => 'dca', 'Dinv08426' => 'din', 'Dinv09685' => 'din', 'Dinv12245' => 'din', 'Dinv12246' => 'din', 'Dinv12247' => 'din', 'Dinv21774' => 'din', 'Dinv28682' => 'din', 'Duzib093G1589' => 'dzi', 'Duzib106G1713' => 'dzi', 'Duzib128G0027' => 'dzi', 'Duzib168G2177' => 'dzi', 'Duzib212G0818' => 'dzi', 'Duzib268G0840' => 'dzi', 'ECA236G3191' => 'eca', 'ECA238G2365' => 'eca', 'ECA247G2669' => 'eca', 'ECA248G2478' => 'eca', 'EL10Ac5g12507' => 'bvu', 'EL10Ac7g15902' => 'bvu', 'EL10Ac8g18974' => 'bvu', 'EL10Ac8g19036' => 'bvu', 'Eucgr.A00608' => 'egr', 'Eucgr.H02737' => 'egr', 'Eucgr.J01850' => 'egr', 'Eucgr.K02962' => 'egr', 'FAN01G3006' => 'fan', 'FAN03G0796' => 'fan', 'FAN06G0716' => 'fan', 'FAN10G1063' => 'fan', 'FAN11G0037' => 'fan', 'FAN11G1838' => 'fan', 'FAN11G3768' => 'fan', 'FAN16G0450' => 'fan', 'FAN16G2732' => 'fan', 'FAN16G2764' => 'fan', 'FAN21G0108' => 'fan', 'FAN21G1089' => 'fan', 'FAN21G2165' => 'fan', 'FAN24G0756' => 'fan', 'FAN25G0381' => 'fan', 'FAN25G1597' => 'fan', 'FAN25G1758' => 'fan', 'FvH4_3g13310' => 'fve', 'FvH4_3g39480' => 'fve', 'FvH4_3g39950' => 'fve', 'FvH4_7g25090' => 'fve', 'Glyma.01G124300' => 'gma', 'Glyma.02G047800' => 'gma', 'Glyma.02G232900' => 'gma', 'Glyma.02G263200' => 'gma', 'Glyma.03G050300' => 'gma', 'Glyma.14G056900' => 'gma', 'Glyma.14G200551' => 'gma', 'Glyma.16G127500' => 'gma', 'Gohir.A01G229300' => 'ghi', 'Gohir.A02G090700' => 'ghi', 'Gohir.A03G024800' => 'ghi', 'Gohir.A04G095042' => 'ghi', 'Gohir.A09G167100' => 'ghi', 'Gohir.A09G213602' => 'ghi', 'Gohir.A10G143200' => 'ghi', 'Gohir.D01G219200' => 'ghi', 'Gohir.D02G109800' => 'ghi', 'Gohir.D03G143700' => 'ghi', 'Gohir.D04G103700' => 'ghi', 'Gohir.D04G134900' => 'ghi', 'Gohir.D09G163000' => 'ghi', 'Gohir.D09G212000' => 'ghi', 'Gohir.D10G123900' => 'ghi', 'Gorai.002G266000' => 'gra', 'Gorai.003G151000' => 'gra', 'Gorai.005G123400' => 'gra', 'Gorai.006G184600' => 'gra', 'Gorai.006G231800' => 'gra', 'Gorai.009G407300' => 'gra', 'Gorai.011G136800' => 'gra', 'Gorai.012G118500' => 'gra', 'GSVIVG01024668001' => 'vvi', 'GSVIVG01030295001' => 'vvi', 'GSVIVG01032756001' => 'vvi', 'HanXRQChr04g0105831' => 'han', 'HanXRQChr09g0266351' => 'han', 'HanXRQChr10g0284761' => 'han', 'HanXRQChr10g0287141' => 'han', 'HanXRQChr10g0312111' => 'han', 'HanXRQChr15g0463911' => 'han', 'HanXRQChr16g0509651' => 'han', 'Haze_17270' => 'cav', 'Haze_24393' => 'cav', 'Haze_24430' => 'cav', 'Haze_27065' => 'cav', 'Hma1.2p1_0292F.1_g115540' => 'hma', 'Hma1.2p1_0479F.1_g161580' => 'hma', 'HPP92_011994' => 'vpl', 'HPP92_012011' => 'vpl', 'HPP92_025221' => 'vpl', 'HPP92_026815' => 'vpl', 'Hund08884' => 'sun', 'Hund14917' => 'sun', 'Hund17932' => 'sun', 'Hund18958' => 'sun', 'Hund22528' => 'sun', 'Lalb_Chr04g0250411' => 'lal', 'Lalb_Chr04g0251881' => 'lal', 'Lalb_Chr07g0191171' => 'lal', 'Lalb_Chr10g0105271' => 'lal', 'Lalb_Chr17g0346881' => 'lal', 'Lj1g0022161' => 'lja', 'Lj2A1095G44' => 'lonja', 'Lj2A1095G45' => 'lonja', 'Lj2A69G63' => 'lonja', 'Lj3C947T10' => 'lonja', 'LjContig00141g0020287' => 'lja', 'LjContig00357g0019260' => 'lja', 'Lsat_1_v5_gn_5_149541' => 'lsa', 'Lsat_1_v5_gn_8_102800' => 'lsa', 'Lsat_1_v5_gn_8_108741' => 'lsa', 'Lsat_1_v5_gn_9_37241' => 'lsa', 'Manes.03G095200' => 'mes', 'Manes.08G097700' => 'mes', 'Manes.15G111900' => 'mes', 'Manes.15G112000' => 'mes', 'Manes.18G136800' => 'mes', 'Mapoly0012s0119' => 'mpo', 'Mapoly0012s0120' => 'mpo', 'Mapoly0076s0060' => 'mpo', 'MBI03_g13043_MAGBIO' => 'mbi', 'MBI03_g13045_MAGBIO' => 'mbi', 'MBI14_g14547_MAGBIO' => 'mbi', 'MBI16_g25127_MAGBIO' => 'mbi', 'MBI16_g28572_MAGBIO' => 'mbi', 'MBI18_g02739_MAGBIO' => 'mbi', 'MBI18_g34826_MAGBIO' => 'mbi', 'MBI18_g42642_MAGBIO' => 'mbi', 'MBI19_g29230_MAGBIO' => 'mbi', 'MCO05G029' => 'mco', 'MCO05G183' => 'mco', 'MD01G1157600' => 'mdo', 'MD03G1058100' => 'mdo', 'MD03G1060700' => 'mdo', 'MD03G1060900' => 'mdo', 'MD05G1242900' => 'mdo', 'MD10G1225000' => 'mdo', 'MD11G1063600' => 'mdo', 'Medtr4g014590' => 'mtr', 'Medtr5g018940' => 'mtr', 'Medtr5g074510' => 'mtr', 'Medtr7g069950' => 'mtr', 'Medtr8g052030' => 'mtr', 'MELO3C018378.2' => 'cme', 'MELO3C020494.2' => 'cme', 'MELO3C023660.2' => 'cme', 'MELO3C023703.2' => 'cme', 'Migut.D00839' => 'egut', 'Migut.F00979' => 'egut', 'Migut.J00115' => 'egut', 'MSTRG.18983' => 'ama', 'MSTRG.21246' => 'ama', 'MSTRG.25' => 'ama', 'Nitab4.5_0000046g0010' => 'nta', 'Nitab4.5_0000046g0060' => 'nta', 'Nitab4.5_0000501g0050' => 'nta', 'Nitab4.5_0000684g0150' => 'nta', 'Nitab4.5_0000869g0100' => 'nta', 'Nitab4.5_0000967g0040' => 'nta', 'Nitab4.5_0001115g0030' => 'nta', 'Nitab4.5_0004174g0010' => 'nta', 'Nitab4.5_0005963g0060' => 'nta', 'Nitab4.5_0008464g0010' => 'nta', 'Nn1g01944' => 'nnu', 'Nn1g01964' => 'nnu', 'Nn2g11057' => 'nnu', 'Nn3g19316' => 'nnu', 'Nn7g37120' => 'nnu', 'Nn7g37141' => 'nnu', 'Oeu027337.1' => 'oeu', 'Oeu049285.1' => 'oeu', 'Oeu050026.1' => 'oeu', 'Oeu050029.1' => 'oeu', 'Oeu050709.1' => 'oeu', 'Os01g0358400' => 'osa', 'Os01g0977600' => 'osa', 'Os02g0105900' => 'osa', 'Os05g0368300' => 'osa', 'Peaxi162Scf00053g00258' => 'pax', 'Peaxi162Scf00055g00202' => 'pax', 'Peaxi162Scf00333g00213' => 'pax', 'Peaxi162Scf00390g00828' => 'pax', 'Peaxi162Scf01860g00003' => 'pax', 'PGR031G0580' => 'pgr', 'PGR044G0152' => 'pgr', 'PGR044G0636' => 'pgr', 'PGR119G0697' => 'pgr', 'PGSC0003DMG400020548' => 'stu', 'PGSC0003DMG400021170' => 'stu', 'PGSC0003DMG401017675' => 'stu', 'PGSC0003DMG402017675' => 'stu', 'Phvul.002G092000' => 'pvu', 'Phvul.003G261200' => 'pvu', 'Phvul.008G221000' => 'pvu', 'Phvul.008G221300' => 'pvu', 'Phvul.008G250900' => 'pvu', 'Potri.006G103700' => 'ptr', 'Potri.013G011000' => 'ptr', 'Potri.015G033700' => 'ptr', 'Potri.015G079600' => 'ptr', 'Potri.016G124100' => 'ptr', 'Potri.019G126000' => 'ptr', 'Pp3c11_1040' => 'ppa', 'Pp3c11_3690' => 'ppa', 'Pp3c16_18880' => 'ppa', 'Pp3c1_8290' => 'ppa', 'Pp3c25_3730' => 'ppa', 'Pp3c25_3736' => 'ppa', 'Pp3c2_24930' => 'ppa', 'Pp3c6_7730' => 'ppa', 'Pp3c7_23800' => 'ppa', 'PRCOL_00002801' => 'pco', 'PRCOL_00006617' => 'pco', 'Prupe.2G255500' => 'ppe', 'Prupe.4G120500' => 'ppe', 'Prupe.6G045900' => 'ppe', 'Prupe.6G051000' => 'ppe', 'Psat0s2215g0320' => 'psa', 'Psat0s2465g0160' => 'psa', 'Psat0s3437g0080' => 'psa', 'Psat2g030320' => 'psa', 'Psat2g054080' => 'psa', 'Psat3g023200' => 'psa', 'Psat3g124800' => 'psa', 'Psat4g121040' => 'psa', 'Psat7g247160' => 'psa', 'PSO017G5325' => 'pso', 'PSO017G5353' => 'pso', 'PSO170G1906' => 'pso', 'PSO170G6524' => 'pso', 'PSO210G6315' => 'pso', 'PSO210G6728' => 'pso', 'PSO339G0645' => 'pso', 'PSO349G0109' => 'pso', 'PSO349G0177' => 'pso', 'PSO765G0080' => 'pso', 'PSO765G0090' => 'pso', 'PSO801G0298' => 'pso', 'QL01p025823' => 'qlo', 'QL01p039909' => 'qlo', 'QL04p095953' => 'qlo', 'QL04p095957' => 'qlo', 'QL07p010983' => 'qlo', 'QL08p063716' => 'qlo', 'QL11p010858' => 'qlo', 'RcHm_v2.0_Chr1g0370941' => 'rch', 'RcHm_v2.0_Chr5g0021781' => 'rch', 'RcHm_v2.0_Chr5g0061981' => 'rch', 'RcHm_v2.0_Chr5g0071221' => 'rch', 'RcHm_v2.0_Chr5g0071961' => 'rch', 'Rhsim05G0223800' => 'rsi', 'Rhsim13G0062700' => 'rsi', 'Sabra13G0009600' => 'sbr', 'Sabra15G0027700' => 'sbr', 'Sabra15G0103900' => 'sbr', 'Sabra16G0118900' => 'sbr', 'Sabra19G0124000' => 'sbr', 'Sabra19G0130600' => 'sbr', 'SalBow2G1483' => 'sbo', 'SalBow5G5267' => 'sbo', 'Sc06g0008120' => 'sci', 'Sc16g0010160' => 'sci', 'Sc22g0002640' => 'sci', 'Sc23g0005980' => 'sci', 'Sc23g0006010' => 'sci', 'Sed0000039' => 'sed', 'Sed0009488' => 'sed', 'Sed0011357' => 'sed', 'Sed0018916' => 'sed', 'Sed0020291' => 'sed', 'SEGI_04376' => 'sgi', 'SGA_v2.0_scaffold19G08858' => 'sas', 'SGA_v2.0_scaffold20G09297' => 'sas', 'SGA_v2.0_scaffold665G53409' => 'sas', 'SGA_v2.0_scaffold75G25031' => 'sas', 'SGA_v2.0_scaffold85G26709' => 'sas', 'SHI04063' => 'shi', 'SMO134G0022' => 'smo', 'SMO367G0609' => 'smo', 'Solyc02g070330.4' => 'sly', 'Solyc02g070340.3' => 'sly', 'Solyc04g016335.1' => 'sly', 'Solyc06g007360.3' => 'sly', 'Solyc09g055260.4' => 'sly', 'Sopen02g019410' => 'spe', 'Sopen02g019420' => 'spe', 'Sopen02g019430' => 'spe', 'Sopen02g019440' => 'spe', 'Sopen02g019450' => 'spe', 'Sopen04g008440' => 'spe', 'Sopen06g002290' => 'spe', 'Sopen09g017350' => 'spe', 'Sp3g30680' => 'spa', 'Sp4g20620' => 'spa', 'Sp6g20090' => 'spa', 'Sp6g20100' => 'spa', 'Sp6g35780' => 'spa', 'TAR209G0004' => 'tar', 'TAR623G0321' => 'tar', 'TAR623G0949' => 'tar', 'TAR623G1063' => 'tar', 'TAR623G1147' => 'tar', 'TAR633G0690' => 'tar', 'TAR636G3696' => 'tar', 'THA.LOC104806029' => 'tha', 'THA.LOC104806617' => 'tha', 'THA.LOC104810689' => 'tha', 'THA.LOC104823372' => 'tha', 'Thecc.01G302300' => 'tca', 'Thecc.05G008500' => 'tca', 'Thecc.09G359500' => 'tca', 'Thhalv10012416m.g' => 'esa', 'Thhalv10014163m.g' => 'esa', 'Thhalv10014417m.g' => 'esa', 'Thhalv10017036m.g' => 'esa', 'Thhalv10017108m.g' => 'esa', 'Thhalv10022813m.g' => 'esa', 'TPR.G197' => 'tpr', 'TPR.G25340' => 'tpr', 'TPR.G25341' => 'tpr', 'TPR.G29862' => 'tpr', 'TPR.G38383' => 'tpr', 'TPR.G5243' => 'tpr', 'TPR.G6671' => 'tpr', 'TWI31G1283' => 'twi', 'TWI31G1315' => 'twi', 'TWI75G1611' => 'twi', 'TWI77G0216' => 'twi', 'TWI79G0646' => 'twi', 'unitig_0.g201' => 'ugi', 'unitig_0.g202' => 'ugi', 'unitig_32.g11517' => 'ugi', 'unitig_32.g11523' => 'ugi', 'unitig_578.g15906' => 'ugi', 'unitig_748.g7559' => 'ugi', 'unitig_8.g4460' => 'ugi', 'vmacro02906' => 'vma', 'vmacro11551' => 'vma', 'vmacro11552' => 'vma', 'vmacro11553' => 'vma', 'vmacro11554' => 'vma', 'vmacro11555' => 'vma', 'vmacro11841' => 'vma', 'vmacro11859' => 'vma', 'vmacro20315' => 'vma', 'vmacro20442' => 'vma', 'vmacro22799' => 'vma', 'vmacro22800' => 'vma', 'vmacro22801' => 'vma', 'vmacro22802' => 'vma', 'VMungo0251G2676' => 'vmu', 'VMungo0331G1878' => 'vmu', 'VMungo0647G0120' => 'vmu', 'VMungo0647G0153' => 'vmu', 'Zm00001eb024470' => 'zma', 'Zm00001eb027140' => 'zma', 'Zm00001eb028830' => 'zma', 'Zm00001eb036210' => 'zma', 'Zm00001eb037660' => 'zma', 'Zm00001eb063980' => 'zma', 'Zm00001eb084700' => 'zma', 'Zm00001eb086460' => 'zma', 'Zm00001eb093280' => 'zma', 'Zm00001eb093680' => 'zma', 'Zm00001eb095320' => 'zma', 'Zm00001eb096760' => 'zma', 'Zm00001eb141650' => 'zma', 'Zm00001eb155460' => 'zma', 'Zm00001eb169000' => 'zma', 'Zm00001eb177040' => 'zma', 'Zm00001eb179240' => 'zma', 'Zm00001eb203250' => 'zma', 'Zm00001eb206190' => 'zma', 'Zm00001eb211010' => 'zma', 'Zm00001eb233890' => 'zma', 'Zm00001eb239190' => 'zma', 'Zm00001eb239940' => 'zma', 'Zm00001eb270360' => 'zma', 'Zm00001eb281330' => 'zma', 'Zm00001eb302860' => 'zma', 'Zm00001eb305900' => 'zma', 'Zm00001eb307230' => 'zma', 'Zm00001eb309130' => 'zma', 'Zm00001eb318460' => 'zma', 'Zm00001eb321280' => 'zma', 'Zm00001eb382210' => 'zma', 'Zm00001eb442890' => 'zma' ) $gf_id = 'HOM05D001072' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001072' ) $data_identifier = 'HOM05D001072' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 6, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 13, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 2, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 5, 'lja' => (int) 3, 'lonja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 9, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 9, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 12, 'qlo' => (int) 7, 'rch' => (int) 5, 'rsi' => (int) 2, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 8, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 14, 'vmu' => (int) 4, 'zma' => (int) 33 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb442890' $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